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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atggatacaatatattggttgggtgcttcagttttctttccctatccagccaacaaatgatgtaactgagcttgtcattcttcttttaatgtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTCACCGTTCTTGTCTTGACCACTGGCGATCTGTTAAG

Basic information

species Zea mays
transcript GRMZM2G044569_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044569_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os08g29590.1 (Oryza sativa), 3'ss of exon 2
atggatacaatatattggttgggtgcttcagttttctttccctatc-cagcca--acaaatgatgtaactgagcttgtcattcttcttttaatgtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTCACCGTTCTTGTCTTGACCACTGGCGATCTGTTAAG
  |  |   ||| || |      ||  ||| |||  |||    ||  ||   |  |||| | |||||| | | | |    |  |  |  | |   | || |||||||||| || ||||||||||||||||||||||||||||| || ||||||||||| || || |||||||||||| |||||||||||
-agtgtgatataaatagacataatg--tcaatttggtttttagattgcaataagtacaagtcatgtaattcaaccttctttgttcatgcttaccatgttacagGTGATGAACTGATATCACCTTGCATGTGCAAGGGAACTCAACAATTTGTTCACCGCTCATGCCTTGACCACTGGAGATCTGTTAAG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|47962587|gb|CN845296.1|CN845296
EST:     CTCTTCTGCTGCGTGTTGCCGCATTTGCCTTGAGGCTGAGTCTGAGATAG                         GTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
genomic: CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAGgtgatggtcc ... gtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
EST: gi|78085525|gb|DV513918.1|DV513918
EST:     CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAG                         GTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
genomic: CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAGgtgatggtcc ... gtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
EST: gi|71766873|gb|DR964810.1|DR964810
EST:     CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAG                         GTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
genomic: CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAGgtgatggtcc ... gtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
EST: gi|71764260|gb|DR962197.1|DR962197
EST:     CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAG                         GTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
genomic: CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAGgtgatggtcc ... gtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
EST: gi|89253176|gb|DY624962.1|DY624962
EST:     ATCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAG                         GTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
genomic: CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAGgtgatggtcc ... gtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
EST: gi|71449470|gb|DR830520.1|DR830520
EST:     CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCGGAGATAG                         GTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
genomic: CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAGgtgatggtcc ... gtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
EST: gi|78075719|gb|DV504153.1|DV504153
EST:     CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAG                         GTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
genomic: CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAGgtgatggtcc ... gtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
EST: gi|78085425|gb|DV513818.1|DV513818
EST:     CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAG                         GTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
genomic: CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAGgtgatggtcc ... gtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
EST: gi|74242907|gb|DT650821.1|DT650821
EST:     CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAG                         GTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
genomic: CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAGgtgatggtcc ... gtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
EST: gi|91875640|gb|EB405597.1|EB405597
EST:     CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAG                         GTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
genomic: CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAGgtgatggtcc ... gtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
EST: gi|149051784|gb|EE155909.2|EE155909
EST:     CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAG                         GTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
genomic: CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAGgtgatggtcc ... gtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
EST: gi|76287272|gb|DV026840.1|DV026840
EST:     CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAG                         GTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
genomic: CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAGgtgatggtcc ... gtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
EST: gi|91877670|gb|EB407627.1|EB407627
EST:     CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAG                         GTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
genomic: CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAGgtgatggtcc ... gtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
EST: gi|26457371|gb|CA828954.1|CA828954
EST:     CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAG                         GTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
genomic: CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAGgtgatggtcc ... gtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
EST: gi|67025393|gb|CO454142.1|CO454142
EST:     CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAG                         GTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
genomic: CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAGgtgatggtcc ... gtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
EST: gi|211122360|gb|FL034211.1|FL034211
EST:     CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAG                         GTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC
genomic: CTCTTCTGCTGCGTGCTGCCGCATTTGCCTTGAGAATGAGTCTGAGATAGgtgatggtcc ... gtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccagccaacaaatgatgtaactgagcttgtcattcttcttttaatgtttttgcagGTGATGAGCTAATATCACCTTGCATGTGCAAGGGAACTCAGCAGTTTGTTCACCGTTCTTGTCTTGACCACTGGCGATCTGTTAAG
                                      ttttaat  putative branch site (score: 3)
                                            tgttttt  CT-rich tract
                                   ttcttttaatgttttt  TA-rich tract